Wikidata SPARQL Query Log Item and Property Co-occurrence Analysis

This is part 2 of a blog post describing Wikidata SPARQL query logs. Part 1 is here. In this part, we’ll look at the most used items and specifically look at diseases, drugs, genes and proteins. And then look at co-occurrence of properties within queries.. Below is a plot of the most used items by total query count and by unique query count   Next, I’ll look specifically at diseases....
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Wikidata Sparql Query Log Analysis

We recently gained access to the anonymised logs of several hundred million SPARQL queries from the Wikidata SPARQL endpoint. This blog post contains some discussion about the main takeaway points, while the full analysis and code can be found here. What are we looking for? We are interested in biomedical properties and items in Wikidata, specifically looking at how these entities are used...
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Microscopy Masters Launch

In a previous blog post, we asked for beta testers for our Zooniverse-hosted citizen science project Microscopy Masters. Thanks to the feedback we received from our initial testing run, the project was approved for a full launch by Zooniverse and is up and running on their site. Thanks to everybody who tested or left any comments, we really appreciate it. You can learn more about our project by...
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Ringing In The New Year With Dysferlin — #GeneOTW

Sometimes, the entire month of December feels like an endless stream of holiday parties, non-stop feasting, and way too many cookies. Since my holiday vices tend toward roast duck and copious amounts of sticky rice, I’m definitely looking forward to a more fitness-focused January. With health-related New Year’s resolutions being so common, many people (myself included) will soon be trading in...
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BioInform profile of the Gene Wiki

Genomeweb’s BioInform newsletter just published a profile of our Gene Wiki effort (free registration required). The article was prompted by my keynote presentation and Ben Good’s paper in the Bio-ontologies SIG at ISMB. Inspired to get more involved in the Gene Wiki...
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